PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Cagra.2826s0004.1.p
Organism
Capsella grandiflora
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family MYB_related
Protein Properties Length: 308aa    MW: 33889.7 Da    PI: 10.0371
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cagra.2826s0004.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding37.65.1e-12555146
                         TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHT.....TTS-HHHHHHHHHH CS
      Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmg.....kgRtlkqcksrwqk 46
                         +++WT+eE+  l+ +v ++G+g W+tI +          R+  ++k++w++
  Cagra.2826s0004.1.p  5 KQKWTQEEESALKSGVIKHGPGKWRTILKDPEfsgvlYLRSNVDLKDKWRN 55
                         79***********************************88***********9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129411.594158IPR017930Myb domain
SuperFamilySSF466894.68E-15271IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.601.7E-13456IPR009057Homeodomain-like
SMARTSM007175.4E-7459IPR001005SANT/Myb domain
PfamPF002491.2E-8555IPR001005SANT/Myb domain
CDDcd116601.00E-17656No hitNo description
SMARTSM005263.2E-13120187IPR005818Linker histone H1/H5, domain H15
SuperFamilySSF467855.44E-15123200IPR011991Winged helix-turn-helix DNA-binding domain
Gene3DG3DSA:1.10.10.101.0E-12124193IPR011991Winged helix-turn-helix DNA-binding domain
PROSITE profilePS5150421.262124192IPR005818Linker histone H1/H5, domain H15
PfamPF005385.0E-7129185IPR005818Linker histone H1/H5, domain H15
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006334Biological Processnucleosome assembly
GO:0006357Biological Processregulation of transcription from RNA polymerase II promoter
GO:0009651Biological Processresponse to salt stress
GO:0009723Biological Processresponse to ethylene
GO:0009733Biological Processresponse to auxin
GO:0009737Biological Processresponse to abscisic acid
GO:0009739Biological Processresponse to gibberellin
GO:0009751Biological Processresponse to salicylic acid
GO:0009753Biological Processresponse to jasmonic acid
GO:0046686Biological Processresponse to cadmium ion
GO:0000786Cellular Componentnucleosome
GO:0005730Cellular Componentnucleolus
GO:0003691Molecular Functiondouble-stranded telomeric DNA binding
GO:0033613Molecular Functionactivating transcription factor binding
GO:0042803Molecular Functionprotein homodimerization activity
GO:0070491Molecular Functionrepressing transcription factor binding
GO:1990841Molecular Functionpromoter-specific chromatin binding
Sequence ? help Back to Top
Protein Sequence    Length: 308 aa     Download sequence    Send to blast
MGAPKQKWTQ EEESALKSGV IKHGPGKWRT ILKDPEFSGV LYLRSNVDLK DKWRNMSVMA  60
NGWGSREKSR LAVKRTLSLP KQEDNSLALT TSLQSDEEMV DAKHFSTTGS SALQLPSTPA  120
PRRPNVRLDN LIMEAIATLK EPGGCNKTSI GAYIEDQYHA PLDFKRLLST KLKYLTACGK  180
LVKVKRKYRI PNSTPLYSHK RKNLGIFSGR QRTSGLPSPK TDRDETTFQT RSQIEAELAR  240
MKSMNVHEAA AVAAQAVAEA EAAMAEAEEA AKEAEVAEAE AEAAQAFAEE ASKTLKGRNN  300
CKVMIRA*
Functional Description ? help Back to Top
Source Description
UniProtBinds preferentially double-stranded telomeric repeats. {ECO:0000269|PubMed:19102728}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00607ChIP-seqTransfer from AT1G49950Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapCagra.2826s0004.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankATU836240.0U83624.1 Arabidopsis thaliana telomere repeat binding factor 1 (TRB1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006303249.10.0telomere repeat-binding factor 1
SwissprotQ8VWK41e-165TRB1_ARATH; Telomere repeat-binding factor 1
TrEMBLR0GJQ00.0R0GJQ0_9BRAS; Uncharacterized protein
STRINGCagra.2826s0004.1.p0.0(Capsella grandiflora)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM87222539
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G49950.31e-162telomere repeat binding factor 1
Publications ? help Back to Top
  1. Alexandrov NN, et al.
    Features of Arabidopsis genes and genome discovered using full-length cDNAs.
    Plant Mol. Biol., 2006. 60(1): p. 69-85
    [PMID:16463100]
  2. Schrumpfová PP, et al.
    Telomere repeat binding proteins are functional components of Arabidopsis telomeres and interact with telomerase.
    Plant J., 2014. 77(5): p. 770-81
    [PMID:24397874]
  3. Liang SC, et al.
    Kicking against the PRCs - A Domesticated Transposase Antagonises Silencing Mediated by Polycomb Group Proteins and Is an Accessory Component of Polycomb Repressive Complex 2.
    PLoS Genet., 2015. 11(12): p. e1005660
    [PMID:26642436]
  4. Fulcher N,Riha K
    Using Centromere Mediated Genome Elimination to Elucidate the Functional Redundancy of Candidate Telomere Binding Proteins in Arabidopsis thaliana.
    Front Genet, 2015. 6: p. 349
    [PMID:26779251]
  5. Kotliński M, et al.
    Phylogeny-Based Systematization of Arabidopsis Proteins with Histone H1 Globular Domain.
    Plant Physiol., 2017. 174(1): p. 27-34
    [PMID:28298478]